Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024819.1 Corchorus olitorius cultivar O-4 contig24852, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 28157
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:3399 original size:22 final size:23

Alignment explanation


    Indices: 3356--3401  Score: 58
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       3346 CAAAATGGTT

                             *     
       3356 AATATAAATTTTGCCCTTAATTA
          1 AATATAAATTTTGCCCTAAATTA

                  *      *         
       3379 AATATATATTTTGGCC-AAATTA
          1 AATATAAATTTTGCCCTAAATTA

             
       3401 A
          1 A

       3402 CTAGGGTTTT


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  22    6  0.30
  23   14  0.70

ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41


Consensus pattern (23 bp):   
AATATAAATTTTGCCCTAAATTA

Found at i:4078 original size:24 final size:24

Alignment explanation


    Indices: 3962--4072  Score: 150
    Period size: 24  Copynumber: 4.6  Consensus size: 24

       3952 AATCACACGG

                        *          *
       3962 CCACATAGTGGTTGTGAGAAACGG
          1 CCACATAGTGGTCGTGAGAAACGA

                       * *     **   
       3986 CCACATAGTGGCCATGAGATTCGA
          1 CCACATAGTGGTCGTGAGAAACGA

                  *                 
       4010 CCACATGGTGGTCGTGAGAAACGA
          1 CCACATAGTGGTCGTGAGAAACGA

                  *                 
       4034 CCACATGGTGGTCGTGAGAAACGA
          1 CCACATAGTGGTCGTGAGAAACGA

                           
       4058 CCACATAGTGGTCGT
          1 CCACATAGTGGTCGT

       4073 ATGAAAAGAC


Statistics
Matches: 75,  Mismatches: 12, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  24   75  1.00

ACGTcount: A:0.28, C:0.22, G:0.31, T:0.20


Consensus pattern (24 bp):   
CCACATAGTGGTCGTGAGAAACGA

Done.